GgaINT0077046 @ galGal3
Intron Retention
Gene
ENSGALG00000012068 | C4orf21
Description
NA
Coordinates
chr4:58673925-58675245:+
Coord C1 exon
chr4:58673925-58674164
Coord A exon
chr4:58674165-58675106
Coord C2 exon
chr4:58675107-58675245
Length
942 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
ACTTATTTATTTATTTTTAGGAC
3' ss Score
10.07
Exon sequences
Seq C1 exon
ATGCTGTCGGGTGACACAGGAGAGAGCCAGAGCAGCACTGTGAATAACAACACTCCCGGCTCTGTACCTCTGCTGAGAGCAAAGAGCGTGCTTAGTGAATGCTGTGCAGATAGCAGCAACCAAGATTTGATTTCAGAAAGGAAGTTACTTTCTCTTCACTTAAATCAGACTCCTTTAACTGAACCAGCACAAAAGGTGTTGAGTCATCTGACCTGCCGCACTGTGACAGGAGATGTCCAG
Seq A exon
GTGTGTAACTGTTCAAGCAGATACAGTTTAGCTAATAGAAATACATTTTTCTGCACAAAGCAACTTCATTTATCTGATTTCCTGCACAATATTATCAGCATGATAGGATGAGATGTTTCTGTGTATGTAGTATCACAAAAGAGGCTCTGCTACAAAACAGCAGCTGCTAAAGGAATTTAAGTGGTGTGACCAAGCCCTTATGAAGGTAATTCCTTGATTCACATGGTGCCAGACTTAGGTTTTTTTTTTTTAGTCTGAATGTTGATGGCAAGGAGATAAATCAGTACAGTGGGGTTTTTTTCCCCATCTTTTATTGGTAATAACATTTCTAATAGATATTTTTCTTAACTATGAAATTAGCATCATTTTCATGAACATCCACATCTTGCTTCAAAGTATAGTCTCTAATTTTAAAATACTTTAAATATCATCAATTTAGTGATGGAAAAGCAAGTTGTGACATTGAGTAAAGGCCTACAGAATTAGCAGCTAGCACAGCTGCTTGTGACTGGTAGACTATGTTTAAATATATATAAAAATACATATATATACATAACTATATATATATATAGGAGAAAATAAAAACAATAAACCTGTGTTCTTAAGAATGCAAGCTGTTTTTCCAGGAACAAATTTTAACTTCAGTGAAAGGTGTGCATCCTGAATGATAGTTCCAGCTCACTATGCTGCAGTTCCAAGTGTATTTAATTTATTCCTCTTGGATACATGTCTCTGTACTTCCAGCTAACAAGTTCTGCAAGTGTTTGTGCTAAAGTAGGTTTGTATTTTGCTTTTGAAAAACTTCATCTTGAAACTTGTGGTGGCAGAACAAGGCCATGAAAAATCTGATTTTGACAGATGTGTACAGTAGCCATTTATGAAAGTTTGTCTCACTCAAGATTTTGCAAACTTTTAACAGCCTACTTATTTATTTATTTTTAG
Seq C2 exon
GACATAACAGTTTCTGAGTTGTCTTTTCCTAATGCAGATAAAGTAAAACATGCTAGTCTTCCTAAAAGAAAGATTGCCATACCAACTGAGTTTCAGTCTCACGTTCACTACAGACAGGTTTTTAAAGCTGCTTTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012068:ENSGALT00000019715:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.275 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACACAGGAGAGAGCCAGAG
R:
ACCTGTCTGTAGTGAACGTGAGA
Band lengths:
348-1290
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]